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引用本文:马颜雯,李继姬,叶莹莹.狄氏斧蛤(Donax dysoni)线粒体全基因组测定及结构特征分析.海洋与湖沼,2023,54(1):246-258.
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狄氏斧蛤(Donax dysoni)线粒体全基因组测定及结构特征分析
马颜雯, 李继姬, 叶莹莹
浙江海洋大学 国家海洋设施养殖工程技术研究中心 浙江舟山 316022
摘要:
为解析狄氏斧蛤(Donax dysoni)线粒体全基因组结构特征以及进化地位,采用二代高通量测序技术获得狄氏斧蛤线粒体基因组全序列,对线粒体基因进行注释并对其序列结构进行分析。结果表明,狄氏斧蛤的线粒体全基因组序列全长为16908bp,碱基组成为A(26.81%)、T(41.13%)、G(21.21%)和C(10.85%),A+T含量为67.94%,表现出明显的AT偏向。与其他双壳贝类相似,狄氏斧蛤共编码13个蛋白质编码基因,包含22个tRNA和2个rRNA,且所有基因均位于H链;蛋白质编码基因拥有3种起始密码子(ATG、ATT、ATA),而除了ND3ND4以及ATP6使用TAG作为终止密码子外,其余所有蛋白质编码基因都使用TAA作为终止密码子。除tRNASer不能折叠成典型的三叶草结构,没有明显的DHU茎环,其余tRNA都能折叠成典型的三叶草结构。狄氏斧蛤与斧蛤科(Donacidae)其他物种具有相同的基因排列,未发现基因重排现象。基于线粒体12个蛋白质编码基因构建62种贝类的进化树,结果显示:Donax semiestriatusDonax vittatus聚为一小支,Donax trunculusDonax variegatus聚为一小支,这四个物种与狄氏斧蛤一起聚为斧蛤科这一支;进化树支持将斧蛤科划归到樱蛤总科中,且将樱蛤总科所属的鸟蛤目单独列为一个目而非划归到帘蛤目中。
关键词:  狄氏斧蛤  线粒体基因组  基因重排  系统发育分析
DOI:10.11693/hyhz20220400101
分类号:S917
基金项目:浙江省省属高校基本科研业务费,2021J005号;舟山市科技计划项目,2021C21017号。
附件
COMPLETE SEQUENCE AND GENE ORGANIZATION OF THE MITOCHONDRIAL GENOME OF CLAM DONAX DYSONI
MA Yan-Wen, LI Ji-Ji, YE Ying-Ying
National Engineering Research Center for Marine Aquaculture, Zhejiang Ocean University, Zhoushan 316022, China
Abstract:
To improve the systematics and taxonomy of Donax dysoni, the complete mitochondrial genome of D. dysoni was sequenced and annotated by the Next-Generation Sequencing. Results show that the total length of the mitochondrial genome is 16 908 bp, consisting A (26.81%), T (41.13%), G (21.21%) and C (10.85%), and A+T content was 67.94%, showing obvious AT bias. Similar to other bivalves, D. dysoni contains 13 proteins, 22 tRNAs, and 2 rRNAs genes, and all the genes are encoded by the H-strand. Protein-coding genes have three start codons (ATG, ATT, and ATA), and all protein-coding genes use TAA as the stop codon; except for ND3, ND4 and ATP6, they use TAG as the stop codon. Among the 22 tRNA genes, 21 tRNA genes (except only for tRNASerI) can fold into a typical perfect secondary structure due to miss a distinct DHU stem ring. The gene arrangements of all species of the Donacidae are consistent. The phylogenetic tree of 62 species show that Donax semiestriatus and Donax vittatus cluster into a small clade, and Donax trunculus and Donax variegatus cluster into a small clade, then clustered together with D. dysoni into Donacidae. The phylogenetic tree supports the inclusion of the family Donacidae to the Tellinoidea, and the inclusion of the order Cardiida to which the Tellinoidea belongs as a separate order rather than as part of the order Venerida.
Key words:  Donax dysoni  mitochondrial genome  gene rearrangement  phylogenetic analysis
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